Genetic relatedness and association mapping of horticulturally valuable traits for the Ceiba plants using ddRAD sequencing

Han, Bingqian; Huang, Songyi; Huang, Guilian; Wu, Xin; Jin, Haixiang; Liu, Ying; Xiao, Yiqiang; Zhou, Renchao

doi:10.1016/j.hpj.2022.01.006

Cited by 4 publications

(3 citation statements)

References 64 publications

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“…Furthermore, in order to facilitate effective breeding efforts, it is important to understand the genetic basis for desirable traits. Genetic markers associated with specific traits can be identified using techniques such as genome sequencing and association mapping [71].…”

Section: Milk-clotting Trialmentioning

confidence: 99%

Chemical Composition, Antioxidant Activity, and Milk-Clotting Activity of Aqueous Extracts from Leaves, Stems, and Flowers of Three Tunisian Ecotypes of Spontaneous and Cultivated Onopordum nervosum ssp. platylepis Murb.: A Potential Novel Vegetable Rennet Option

Kouki,

Essaidi,

Annabi

et al. 2024

Agronomy

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This study aimed to compare the chemical composition of aqueous extracts from different aerial plant parts (leaves, stems, and flowers) of Onopordum nervosum ssp. platylepis growing in different regions (Sousse, Kairouan, and Nabeul) in Tunisia, as well as their antioxidant and milk-clotting properties for both spontaneously grown and cultivated plants. Results showed that phenolic composition varies significantly among ecotypes and plant organs (p < 0.05), with flowers containing the highest amounts of total phenols and flavonoids in both plant types. The flowers from Nabeul (NA) region showed the highest amounts of total phenols and higher phenolic contents compared to leaves and stems, with 44.75 mg GAE/g and 39.79 mg GAE/g in spontaneous and cultivated plants, respectively. However, flowers of spontaneously plants grown in Sousse (SO) showed the highest total flavonoid contents (11.42 mg QE/g). Additionally, the findings indicated that flowers contained higher concentrations of mono- and disaccharides than leaves and stems. The antioxidant activity showed that the radical scavenging activity of O. platylepis aqueous extracts is significantly affected by the organ and genotype (p < 0.05). NA genotype revealed the highest potency in inhibiting free radicals, with flowers having the lowest IC50s values in 2,2-diphenyl-1-picrylhydrazyl (DPPH) and 2,2′-azino-bis(3-ethylbenzothiazoline-6-sulfonic acid) (ABTS) tests, registering 0.13 ± 0.02 and 0.14 ± 0.01 mg/mL, respectively. Milk-clotting activity was limited to flowers of this thistle. Moreover, SO and NA genotypes were identified as the most potent populations to coagulate milk in spontaneous and cultivated plants. The principal component analysis confirms the organ and genotype variability in this thistle, with the first two axes explaining 64.15% of the variance and highlighting a distinct flower group. The obtained results suggest that the domestication of this thistle could be useful for the conservation of biodiversity and the promotion of genotypes with potential technological properties.

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Section: Milk-clotting Trialmentioning

confidence: 99%

Chemical Composition, Antioxidant Activity, and Milk-Clotting Activity of Aqueous Extracts from Leaves, Stems, and Flowers of Three Tunisian Ecotypes of Spontaneous and Cultivated Onopordum nervosum ssp. platylepis Murb.: A Potential Novel Vegetable Rennet Option

Kouki,

Essaidi,

Annabi

et al. 2024

Agronomy

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“…Ongoing optimization of library preparation has resulted in an easy accessed and utilized way for most of angiosperms ( Yang et al., 2016 ). The ddRAD methods has been employed for the construction of genetic linkage maps in cultivated species, Vitis vinifera among them ( Zhu et al., 2018 ; Han et al., 2022 ), and phylogenomics analyses ( Magris et al., 2021 ). Marrano et al.…”

Section: High-throughput Strategies For Genotyping Of Vitis...mentioning

confidence: 99%

Vitis vinifera genotyping toolbox to highlight diversity and germplasm identification

et al. 2023

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The contribution of vine cultivation to human welfare as well as the stimulation of basic social and cultural features of civilization has been great. The wide temporal and regional distribution created a wide array of genetic variants that have been used as propagating material to promote cultivation. Information on the origin and relationships among cultivars is of great interest from a phylogenetics and biotechnology perspective. Fingerprinting and exploration of the complicated genetic background of varieties may contribute to future breeding programs. In this review, we present the most frequently used molecular markers, which have been used on Vitis germplasm. We discuss the scientific progress that led to the new strategies being implemented utilizing state-of-the-art next generation sequencing technologies. Additionally, we attempted to delimit the discussion on the algorithms used in phylogenetic analyses and differentiation of grape varieties. Lastly, the contribution of epigenetics is highlighted to tackle future roadmaps for breeding and exploitation of Vitis germplasm. The latter will remain in the top of the edge for future breeding and cultivation and the molecular tools presented herein, will serve as a reference point in the challenging years to come.

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“…Significantly higher coefficients have a stronger discriminatory effect on varieties. Although there are no definitive rules or conventional tests to determine the appropriate number of components and the cut-off limit for coefficients, some scholars use criteria such as: eigenvalue > 1, variance contribution > 4%, or coefficients > 0.30, to discriminate among varieties (Sanni et al 2012, Sharma et al 2014, Sahu et al 2021, Han et al 2022, Almarri et al 2023, Khan et al 2023. Based on these criteria, six components were selected as discriminating components for the varieties, which together accounted for 84.1% of the total variation (Table 2)…”

Section: Sabran Et Almentioning

confidence: 99%

Population Structure and Diversity of Southeast Asian Rice Varieties

Sabran,

Lestari,

Utami

et al. 2023

Crop Breed. Appl. Biotechnol.

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This study assessed the structure and genetic diversity of rice populations of Southeast Asian varieties, based on quantitative morphological and molecular traits. Population structure analysis revealed four distinct populations as ancestral origin of the varieties in the collection. Some traditional varieties from different countries share the same ancestry, while on the other hand, admixture was observed in the ancestry of some varieties. High diversity in quantitative morphological traits was confirmed in the rice collection. Spikelet fertility and plant height contributed significantly to the diversity.

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Genetic relatedness and association mapping of horticulturally valuable traits for the Ceiba plants using ddRAD sequencing

Cited by 4 publications

References 64 publications

Chemical Composition, Antioxidant Activity, and Milk-Clotting Activity of Aqueous Extracts from Leaves, Stems, and Flowers of Three Tunisian Ecotypes of Spontaneous and Cultivated Onopordum nervosum ssp. platylepis Murb.: A Potential Novel Vegetable Rennet Option

Chemical Composition, Antioxidant Activity, and Milk-Clotting Activity of Aqueous Extracts from Leaves, Stems, and Flowers of Three Tunisian Ecotypes of Spontaneous and Cultivated Onopordum nervosum ssp. platylepis Murb.: A Potential Novel Vegetable Rennet Option

Vitis vinifera genotyping toolbox to highlight diversity and germplasm identification

Population Structure and Diversity of Southeast Asian Rice Varieties

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